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| Status |
Public on Aug 10, 2013 |
| Title |
Zygotic gene activatory network in zebrafish is globally controlled by Pou5f1 SoxB1 enhancers |
| Organism |
Danio rerio |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Genetic control of pluripotent mammalian ES cells is determined by a transcriptional network, with a "central core" of transcription factors, Pou5f1, Sox2 and Nanog. Zebrafish homologues of the "core pluripotency factors" Pou5f1, SoxB1 and Nanog-like are also crucially involved in early development. However, the degree of functional similarity of the network between mammals and non-mammals is a matter of debate. To identify the components of Pou5f1-dependent transcriptional networks, we determined the genomic binding sites for Pou5f1 and Sox2 in late blastula stage zebrafish embryos using ChIP-seq. We found that Sox2 and Pou5f1 are co-binding to the regulatory regions of Sox2, Pou5f1, and Nanog-like, as well as to multiple orthologues of mammalian plutipotency network components.
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| Overall design |
Deep sequencing was performed using the Illumina GAIIx on DNA samples obtained from Sox2 ChIP, Pou5f1-Flag ChIP and Input Control. Pou5f1 was analysed in technical duplicates to obtain higher sequencing depth.
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| Contributor(s) |
Leichsenring M, Maes J, Mössner R, Driever W, Onichtchouk D |
| Citation(s) |
23950494 |
| |
| Submission date |
Jul 31, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Manuel Leichsenring |
| Organization name |
Albert-Ludwigs-University Freiburg
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| Street address |
Hauptstr. 1
|
| City |
Freiburg |
| ZIP/Postal code |
79104 |
| Country |
Germany |
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| Platforms (2) |
| GPL14875 |
Illumina HiSeq 2000 (Danio rerio) |
| GPL15583 |
Illumina Genome Analyzer IIx (Danio rerio) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA171706 |
| SRA |
SRP014632 |
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